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Biological and Chemical Physics Commons™
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Articles 1 - 5 of 5
Full-Text Articles in Biological and Chemical Physics
A Highly Charged Topic: Intrinsically Disordered Proteins And Protein Pka Values, Carter J. Wilson
A Highly Charged Topic: Intrinsically Disordered Proteins And Protein Pka Values, Carter J. Wilson
Electronic Thesis and Dissertation Repository
Intrinsically disordered proteins (IDPs) are known not only for their roles in disease but also for their conformational flexibility, which makes them elusive for experimentation. We consider the role played by theory and simulation in resolving important questions pertaining to IDP structure and dynamics, as well as the nature of the charged residues (e.g., glutamate, lysine, etc.) that enrich them. Specifically, we investigated how the deep learning trained AlphaFold2 (AF2) predictor estimates disorder content, revealing both strong performance in relation to conventional approaches and an important relationship between the AF2 confidence metric and IDP dynamics. We also assessed how modern …
Numerical Simulation Of Adaptive Metabolic Response To Anti-Angiogenic Treatment In Renal Cell Carcinoma, Saranya Varakunan
Numerical Simulation Of Adaptive Metabolic Response To Anti-Angiogenic Treatment In Renal Cell Carcinoma, Saranya Varakunan
Undergraduate Student Research Internships Conference
Renal cell carcinoma, a malignant kidney cancer, is often treated using anti-angiogenic drugs to prevent the growth of blood vessels within the tumour. Although tumours initially respond to this treatment, they eventually develop resistance. This resistance is hypothesized to be caused by a switch to a symbiotic metabolism that allows cells to survive even with a low blood supply.
This project seeks to computationally model the transport of oxygen, lactate, and glucose within a tumour in order to examine how cancer metabolism adapts to changes in blood vessels.
A Non-Contrast Magnetic Resonance Imaging Technique To Assess Blood-Brain Barrier Permeability, Harini Pandithasekera
A Non-Contrast Magnetic Resonance Imaging Technique To Assess Blood-Brain Barrier Permeability, Harini Pandithasekera
Electronic Thesis and Dissertation Repository
The Blood-brain barrier (BBB) regulates the entry of compounds between the blood and the brain, thus plays an important role in brain homeostasis. Studies indicate in disease states such as Alzheimer’s the BBB integrity is compromised. The motive of this project is to investigate the sensitivity of the diffusion-weighted arterial spin labeling (DW-ASL) technique to detect water exchange. Testing the sensitivity requires a reliable method of opening the barrier at specific locations of the brain. Here, a unique technology named focused ultrasound (FUS) has been used to mimic a compromised BBB environment.
A series of experiments were conducted in a …
Fabricating Cost-Effective Nanostructures For Biomedical Applications, Erden Ertorer
Fabricating Cost-Effective Nanostructures For Biomedical Applications, Erden Ertorer
Electronic Thesis and Dissertation Repository
In this thesis we described inexpensive alternatives to fabricate nanostructures on planar substrates and provided example applications to discuss the efficiency of fabricated nanostructures.
The first method we described is forming large area systematically changing multi-shape nanoscale structures on a chip by laser interference lithography. We analyzed the fabricated structures at different substrate positions with respect to exposure time, exposure angle and associated light intensity profile. We presented experimental details related to the fabrication of symmetric and biaxial periodic nanostructures on photoresist, silicon surfaces, and ion-milled glass substrates. Behavior of osteoblasts and osteoclasts on the nanostructures was investigated. These results …
Exploring Bacterial Nanowires: From Properties To Functions And Implications, Kar Man Leung
Exploring Bacterial Nanowires: From Properties To Functions And Implications, Kar Man Leung
Electronic Thesis and Dissertation Repository
The discovery of electrically conductive bacterial nanowires from a broad range of microbes provides completely new insights into microbial physiology. Shewanella oneidensis strain MR-1, a dissimilatory metal-reducing bacterium, produces extracellular bacterial nanowires up to tens of micrometers long, with a lateral dimension of ~10 nm. The Shewanella bacterial nanowires are efficient electrical conductors as revealed by scanning probe techniques such as CP-AFM and STM.
Direct electrical transport measurements along Shewanella nanowires reveal a measured nanowire resistivity on the order of 1 Ω∙cm. With electron transport rates up to 109/s at 100 mV, bacterial nanowires can serve as a …